This dataset is associated with the following paper:

White, M.A., Weiner, B., Lim, G., Prentiss, M., Chu, L., and Kleckner, N. (2025).  Crossover interference mediates multiscale patterning along meiotic chromosomes.  Nature Communications; in press.

The dataset is composed of 17 folders.  


Folder MaraPrentiss_simulatedControlSignalIntensityProfiles (zipped) contains 100 .csv files.  Each csv file is a simulated signal intensity profile that was generated in Mathematica using code MP_MathematicaScriptForSimulatingAndAnalyzingControlDataset.nb. This code is available from github:
https://github.com/mwhite4/multiscaleCrossoverPatterning/

For each of the 100 .csv files, the first column is the position along the simulated chromosome in micrometers.  The second column is the associated signal intensity in arbitrary units.



The other 16 folders contain primary data.  These are named and organized as follows:

The first part of each folder name refers to the six assayed strain/condition (see Table 1, strain list of associated Nature Communications paper for strain names and details).

Each strain/condition is associated with either two or three of the following folders:

1 - �imageFiles�.  This contains primary images of immunostained, spread yeast pachytene chromosomes in .tif format.


2 - �signal intensity profiles�.  This contains the following three subfolders:

	- �RawData� contains the original (unprocessed) signal intensity profiles.

	- �Focal� refers to shorter periodicity signal component. This was obtained by first filtering out frequencies greater than 875nm using iFFT and then smoothing with a 3-pixel moving average.

	- �Domainal� refers to longer periodicity signal component, obtained by filtering out frequencies shorter than 875nm using iFFT.  Unlike for the shorter periodicity signal component, this data was not further processed.


For the above three folders.  All data are in .csv format.  There is a single .csv for each molecule (Zip3, Hop1 and Zip1) of each measured chromosome (Chr01, Chr02, Chr03 etc.). 

Column 1: positions along chromosome in micrometers (pixels*0.067 micrometers).
Column 2: associated signal intensity value in analog-to-digital units.  Note that the mean intensity value has been removed in the shorter and longer periodicity signal components (�FocalComponent� and �DomainalComponent�).

Shorter and longer periodicity signal components were created in MATLAB using custom function triadFilterPlotProfileUsingFFT available from GitHub https://github.com/mwhite4/multiscaleCrossoverPatterning/


3 � �focalAndDomainalPeaks�.

�Focal peaks� contains the positions of shorter periodicity iFFT peaks for each molecule (Zip3, Hop1 and Zip1) of each measured chromosome.  Obtained by peak (and hump) finding on the above �focal� signal intensity profile (i.e. filtered using iFFT and smoothed).

�Domainal peaks� contains the positions of longer periodicity iFFT peaks for each molecule (Zip3, Hop1 and Zip1) of each measured chromosome.  Obtained by peak (and hump) finding on the above �domainal� signal intensity profile (i.e. filtered using iFFT).

Theres is a single .csv for each molecule (Zip3, Hop1 and Zip1).  Each row of the .csv file contains the data for a single measured chromosome.  The first column is the chromosome length, in microns.  Subsequent columns are the positions of detected peaks along that chromosome, also in units of microns.  �Nan� is used to fill empty cells.

Shorter and longer periodicity iFFT peaks were detected using custom MATLAB function getSignalPeakAndHumpPositions available from GitHub https://github.com/mwhite4/multiscaleCrossoverPatterning/

